Seroatlas · Human Serome Atlas

CALR3

Calreticulin-3

Also known as: CALR3_HUMAN, CRT2, CT93, FLJ25355, MGC26577

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: Q96L12
Gene: CALR3
Ensembl: ENSG00000269058
Chromosome: 19
Canonical length: 384 aa
Protein class: Plasma proteins, Predicted intracellular proteins
Secretome location: Intracellular and membrane

OverviewNCBI Gene

The protein encoded by this gene belongs to the calreticulin family, members of which are calcium-binding chaperones localized mainly in the endoplasmic reticulum. This protein is also localized to the endoplasmic reticulum lumen, however, its capacity for calcium-binding may be absent or much lower than other family members. This gene is specifically expressed in the testis, and may be required for sperm fertility. Mutation in this gene has been associated with familial hypertrophic cardiomyopathy. [provided by RefSeq, Dec 2011]

Canonical amino-acid sequenceUniProt

384 residues, UniProt reviewed canonical sequence.

>Q96L12|CALR3
     1  MARALVQLWA ICMLRVALAT VYFQEEFLDG EHWRNRWLQS TNDSRFGHFR LSSGKFYGHK
    61  EKDKGLQTTQ NGRFYAISAR FKPFSNKGKT LVIQYTVKHE QKMDCGGGYI KVFPADIDQK
   121  NLNGKSQYYI MFGPDICGFD IKKVHVILHF KNKYHENKKL IRCKVDGFTH LYTLILRPDL
   181  SYDVKIDGQS IESGSIEYDW NLTSLKKETS PAESKDWEQT KDNKAQDWEK HFLDASTSKQ
   241  SDWNGDLDGD WPAPMLQKPP YQDGLKPEGI HKDVWLHRKM KNTDYLTQYD LSEFENIGAI
   301  GLELWQVRSG TIFDNFLITD DEEYADNFGK ATWGETKGPE REMDAIQAKE EMKKAREEEE
   361  EELLSGKINR HEHYFNQFHR RNEL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CALR3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.38
Highest tissue expression: 62 nTPM

Expression across tissuesHPA

Tissue

testis: 62 nTPM
epididymis: 0.8 nTPM
fallopian tube: 0.1 nTPM
thymus: 0.1 nTPM
thyroid gland: 0.1 nTPM
adipose tissue: 0 nTPM

Single-cell type

early spermatids: 48 nCPM
late primary spermatocytes: 16 nCPM
late spermatids: 12 nCPM
early primary spermatocytes: 2.3 nCPM
differentiating spermatogonia: 0.6 nCPM
epididymal efferent duct ciliated cells: 0.4 nCPM

Immune cell

neutrophil: 0.4 nTPM
memory B-cell: 0.2 nTPM
naive B-cell: 0.2 nTPM
naive CD4 T-cell: 0.1 nTPM
plasmacytoid DC: 0.1 nTPM
basophil: 0 nTPM

Brain region

midbrain: 0.5 nTPM
cerebral cortex: 0.4 nTPM
hippocampal formation: 0.4 nTPM
hypothalamus: 0.4 nTPM
pons: 0.4 nTPM
amygdala: 0.3 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance): 1.14
gnomAD pLI: 0
gnomAD missense Z: 0.35
DepMap mean gene effect: -0.13
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of CALR3 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

NOMO1

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CALR3 as an antibody target. Whether an autoantibody or antibody against CALR3 could matter depends on whether native CALR3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CALR3 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label CALR3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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